1las - Revision history

OCA at 18:48, 29 November 2023

OCA — Wed, 29 Nov 2023 18:48:04 GMT

←Older revision		Revision as of 18:48, 29 November 2023
Line 1:		Line 1:

	==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==		==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==
-	<StructureSection load='1las' size='340' side='right'caption='[[1las~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1las' size='340' side='right'caption='[[1las]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LAS FirstGlance]. <br>		<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LAS FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene~~></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1lab\|1lab]]~~, ~~[[1lae\|1lae]]~~, ~~[[1lai\|1lai]], [[1laq\|1laq]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [https://pdbe.org/1las PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [https://www.ebi.ac.uk/pdbsum/1las PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1las ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [https://pdbe.org/1las PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [https://www.ebi.ac.uk/pdbsum/1las PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1las ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Marnett~~, L J~~]]	+	[[Category: Marnett LJ]]
-	[[Category: Reddy~~, G R~~]]	+	[[Category: Reddy GR]]
-	[[Category: Stone~~, M P~~]]	+	[[Category: Stone MP]]
-	[[Category: Weisenseel~~, J P]]~~	+	[[Category: Weisenseel JP]]
-	~~[[Category: B-type]]~~	+
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Propanodeoxyguanosine~~]]	+

OCA at 05:53, 28 April 2021

OCA — Wed, 28 Apr 2021 05:53:11 GMT

←Older revision		Revision as of 05:53, 28 April 2021
Line 3:		Line 3:
	<StructureSection load='1las' size='340' side='right'caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1las' size='340' side='right'caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1LAS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LAS FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [~~http~~://pdbe.org/1las PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1las PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1las ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [https://pdbe.org/1las PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [https://www.ebi.ac.uk/pdbsum/1las PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1las ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:15, 24 July 2019

OCA — Wed, 24 Jul 2019 09:15:30 GMT

←Older revision		Revision as of 09:15, 24 July 2019
Line 1:		Line 1:

	==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==		==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==
-	<StructureSection load='1las' size='340' side='right' caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1las' size='340' side='right'caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LAS FirstGlance]. <br>		<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LAS FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Marnett, L J]]		[[Category: Marnett, L J]]
	[[Category: Reddy, G R]]		[[Category: Reddy, G R]]

OCA at 10:56, 18 October 2017

OCA — Wed, 18 Oct 2017 10:56:12 GMT

←Older revision		Revision as of 10:56, 18 October 2017
Line 1:		Line 1:
		+
	==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==		==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==
	<StructureSection load='1las' size='340' side='right' caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1las' size='340' side='right' caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://pdbe.org/1las PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://pdbe.org/1las PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1las ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:08, 10 September 2015

OCA — Thu, 10 Sep 2015 17:08:05 GMT

←Older revision		Revision as of 17:08, 10 September 2015
Line 5:		Line 5:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://pdbe.org/1las PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 15:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1las" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:17, 22 December 2014

OCA — Mon, 22 Dec 2014 06:17:47 GMT

←Older revision		Revision as of 06:17, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LAS FirstGlance]. <br>		<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LAS FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Marnett, L J.]]	+	[[Category: Marnett, L J]]
-	[[Category: Reddy, G R.]]	+	[[Category: Reddy, G R]]
-	[[Category: Stone, M P.]]	+	[[Category: Stone, M P]]
-	[[Category: Weisenseel, J P.]]	+	[[Category: Weisenseel, J P]]
	[[Category: B-type]]		[[Category: B-type]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Propanodeoxyguanosine]]		[[Category: Propanodeoxyguanosine]]

OCA at 05:54, 8 June 2014

OCA — Sun, 08 Jun 2014 05:54:28 GMT

←Older revision		Revision as of 05:54, 8 June 2014
Line 1:		Line 1:
-	[[~~Image:~~1las.~~png~~\|~~left~~\|~~200px~~]]	+	==Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.==
		+	<StructureSection load='1las' size='340' side='right' caption='[[1las]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LAS FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=P:2-DEOXY-N1,N2-PROPANO+GUANOSINE+MONOPHOSPHATE'>P</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1lab\|1lab]], [[1lae\|1lae]], [[1lai\|1lai]], [[1laq\|1laq]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1las FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1las OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1las RCSB], [http://www.ebi.ac.uk/pdbsum/1las PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structure of the 1,N(2)-Propanodeoxyguanosine (PdG) adduct was determined at pH 5.2 in the oligodeoxynucleotide duplex 5'-d(CGCGGTXTCCGCG)3'.5'-d(CGCGGACACCGCG)-3' (X = PdG). This sequence, referred to as the -TXT- sequence, is contained within the Salmonella typhimurium hisD3052 gene and contains a palindrome, representing a potential hotspot for frameshift mutagenesis. PdG provides a model for the primary adduct induced in DNA by malondialdehyde, the 3-(2'-deoxy-beta-D-erythro-pentofuranosyl)pyrimido[1,2-a]-purin-10(3H)-one (M(1)G) lesion. The solution structure was refined by molecular dynamics calculations restrained by a combination of NMR-derived distances and dihedral angles, using a simulated annealing protocol. PdG introduced a localized perturbation into the sequence at base pair X(7).C(20), which was pH-dependent. At neutral pH, conformational exchange resulted in spectral line broadening, and it was not possible to determine the structure. A stable structure was observed at pH 5.2 in which PdG rotated about the glycosyl bond into the syn conformation. This placed the exocyclic moiety into the major groove of the duplex. PdG formed a protonated Hoogsteen pair with nucleotide C(20) in the complementary strand. The pseudorotation of the deoxyribose at C(20) was altered to an approximately equal blend of C2'-endo and C3'-endo structures. However, these made little difference in the overall structure of the modified oligodeoxynucleotide. The structure was compared to that of PdG in the 5'-d(CGCXCGGCATG)-3'.5'-(CATGCCGCGCG)-3' sequence (the -CXC- sequence) at pH 5.8 [Singh, U. S., Moe, J. G., Reddy, G. R., Weisenseel, J. P., Marnett, L. J., and Stone, M. P. (1993) Chem. Res. Toxicol. 6, 825-836]. A sequence effect was observed. When PdG was placed into the -TXT- sequence at low pH, the structural perturbation was limited to the X(7).C(20) base pair. In contrast, when PdG was placed into the -CXC- sequence at low pH, both the modified base pair and its 3'-neighbor base pair were disrupted. The results are discussed in the context of differential outcomes for site-specific mutagenesis and replication bypass experiments when PdG was placed in the -TXT- and -CXC- sequences, respectively.

-	~~{{STRUCTURE_1las\| PDB=1las \| SCENE= }}~~	+	Structure of an oligodeoxynucleotide containing a 1,N(2)-propanodeoxyguanosine adduct positioned in a palindrome derived from the Salmonella typhimurium hisD3052 gene: Hoogsteen pairing at pH 5.2.,Weisenseel JP, Reddy GR, Marnett LJ, Stone MP Chem Res Toxicol. 2002 Feb;15(2):127-39. PMID:11849038<ref>PMID:11849038</ref>

-	~~===Solution Structure~~ of the ~~B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation~~.~~===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11849038}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1las]] is a 2 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann.ac.il~~/~~oca-bin/ocashort?id=1LAS OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:011849038<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Marnett, L J.]]		[[Category: Marnett, L J.]]
	[[Category: Reddy, G R.]]		[[Category: Reddy, G R.]]

OCA: Protected "1las" [edit=sysop:move=sysop]

OCA — Tue, 14 Aug 2012 18:13:44 GMT

Protected "1las" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:13, 14 August 2012

OCA at 18:13, 14 August 2012

OCA — Tue, 14 Aug 2012 18:13:43 GMT

←Older revision		Revision as of 18:13, 14 August 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1las.png\|left\|200px]]		[[Image:1las.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1las", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1las\| PDB=1las \| SCENE= }}		{{STRUCTURE_1las\| PDB=1las \| SCENE= }}

	===Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.===		===Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11849038}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11849038 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_11849038}}		{{ABSTRACT_PUBMED_11849038}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA].	+	[[1las]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA].

	==Reference==		==Reference==
-	Structure of an oligodeoxynucleotide containing a 1,N(2)-propanodeoxyguanosine adduct positioned in a palindrome derived from the Salmonella typhimurium hisD3052 gene: Hoogsteen pairing at pH 5.2., Weisenseel JP, Reddy GR, Marnett LJ, Stone MP, Chem Res Toxicol. 2002 Feb;15(2):127-39. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~11849038 11849038]~~	+	<ref group="xtra">PMID:011849038</ref><references group="xtra"/>
	[[Category: Marnett, L J.]]		[[Category: Marnett, L J.]]
	[[Category: Reddy, G R.]]		[[Category: Reddy, G R.]]
Line 30:		Line 18:
	[[Category: B-type]]		[[Category: B-type]]
	[[Category: Dna]]		[[Category: Dna]]
-	[[Category: Nmr]]
	[[Category: Propanodeoxyguanosine]]		[[Category: Propanodeoxyguanosine]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 12:08:35 2008''

OCA at 09:08, 2 July 2008

OCA — Wed, 02 Jul 2008 09:08:39 GMT

←Older revision		Revision as of 09:08, 2 July 2008
Line 1:		Line 1:
-	[[Image:1las.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1las.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1las\| PDB=1las \| SCENE= }}		{{STRUCTURE_1las\| PDB=1las \| SCENE= }}

-	~~'''~~Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.~~'''~~	+	===Solution Structure of the B-DNA Duplex CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct with the Deoxyribose at C20 Opposite PdG in the C3' Endo Conformation.===


-	~~==Overview==~~	+	<!--
-	~~The structure of the 1,N(2)~~-~~Propanodeoxyguanosine (PdG) adduct was determined at pH 5.2 in the oligodeoxynucleotide duplex 5'~~-d(CGCGGTXTCCGCG)3'.5'-d(CGCGGACACCGCG)-3' (X = PdG). This sequence, referred to as the -TXT- sequence, is contained within the Salmonella typhimurium hisD3052 gene and contains a palindrome, representing a potential hotspot for frameshift mutagenesis. PdG provides a model for the primary adduct induced in DNA by malondialdehyde, the 3-(2'-deoxy-beta-D-erythro-pentofuranosyl)pyrimido[1,2-a]-purin-10(3H)-one (M(1)G) lesion. The solution structure was refined by molecular dynamics calculations restrained by a combination of NMR-derived distances and dihedral angles, using a simulated annealing protocol. PdG introduced a localized perturbation into the sequence at base pair X(7).C(20), which was pH-dependent. At neutral pH, conformational exchange resulted in spectral line ~~broadening~~, and it was not possible to determine the structure. A stable structure was observed at pH 5.2 in which PdG rotated about the glycosyl bond into the syn conformation. This placed the exocyclic moiety into the major groove of the duplex. PdG formed a protonated Hoogsteen pair with nucleotide C(20) in the complementary strand. The pseudorotation of the deoxyribose at C(20) was altered to an approximately equal blend of C2'-endo and C3'-endo structures. However, ~~these made little difference in~~ the ~~overall structure of the modified oligodeoxynucleotide. The structure was compared~~ to ~~that of PdG in~~ the ~~5'-d~~(~~CGCXCGGCATG)-3'.5'-(CATGCCGCGCG)-3' sequence (the -CXC- sequence)~~ at ~~pH 5~~.~~8 [Singh, U~~. ~~S., Moe, J. G., Reddy, G. R., Weisenseel, J. P., Marnett, L. J., and Stone, M. P. (1993~~) ~~Chem. Res. Toxicol. 6~~, ~~825-836]. A sequence effect was observed. When PdG was placed into~~ the ~~-TXT- sequence at low pH, the structural perturbation was limited to the X(7)~~.~~C(20) base pair. In contrast, when PdG was placed into the~~ -~~CXC~~- sequence at low pH, both the modified base pair and its 3'-neighbor base pair were disrupted. The results are discussed in the context of differential outcomes for site-specific mutagenesis and replication bypass experiments when PdG was placed in the -TXT- and -CXC- sequences, respectively.	+	The line below this paragraph, {{ABSTRACT_PUBMED_11849038}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 11849038 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_11849038}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LAS OCA].

	==Reference==		==Reference==
Line 28:		Line 32:
	[[Category: Nmr]]		[[Category: Nmr]]
	[[Category: Propanodeoxyguanosine]]		[[Category: Propanodeoxyguanosine]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May~~ 2 23:43:55 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 12:08:35 2008''